Would it be acceptable to modify your Perl program to accept parameters via @ARGV ? If so, scandeps has an option to specify arguments to the program being scanned with the -x in effect: --xargs=STRING Your program could use a supplied parameter to alert it alter its behavior to play nice with scandeps.

Module::ScanDeps will accept a list of arguments as an array ref to the execute option.

(Unfortunately, I have no idea how to make a Moose-based module play nice with scandeps.)